research▌

### Uv - name: "uv" - description: "Checks whether the uv Python package manager is installed and installs it if missing. Ensures uv is on PATH. Use when another skill requires uv as a prerequisite."

### Pubchem Database - name: "pubchem-database" - description: "Query PubChem, search by name/CID/SMILES, retrieve properties, similarity/substructure searches, bioactivity, for cheminformatics. Use when a user asks about a specific chemical, drug, or molecule."

### Human Protein Atlas Database - name: "human-protein-atlas-database" - description: "Use when you want to retrieve semi-quantitative protein expression and spatial localisation data from the Human Protein Atlas (HPA)."

### Ucsc Conservation And Tfbs - name: "ucsc-conservation-and-tfbs" - description: "Fetch Evolutionary Conservation scores (phyloP, phastCons) and Transcription Factor Binding Sites (TFBS) from the UCSC Genome Browser. Use when analyzing whether genomic variants or regions are evolut..."

### Pubmed Database - name: "pubmed-database" - description: "Search PubMed for scientific literature, including published clinical trials. Fetch abstracts and full text. Link published research to biological databases (gene, protein, nucleotide, PubChem) to dis..."

### String Database - name: "string-database" - description: "Query the STRING database for protein-protein interactions (PPIs), functional enrichment, and homology. Use when the user asks about interactions between specific proteins, interaction evidence, confi..."

### Gtex Database - name: "gtex-database" - description: "Use when you want to retrieve quantitative RNA expression data and variant eQTL information from the GTEx (Genotype-Tissue Expression) Project across 54 non-diseased tissue sites."

### Literature Search Biorxiv - name: "literature-search-biorxiv" - description: "Browse, filter, and download life sciences, biology, and medical preprints from bioRxiv and medRxiv. Supports fetching paper metadata by DOI, and browsing by date range with category and keyword filte..."

### Ensembl Database - name: "ensembl-database" - description: "Query the Ensembl database to resolve gene, transcript, and protein IDs, fetch genomic or protein sequences, retrieve gene structures (exons), and get variant consequence and effect predictions (VEP)...."

### Protein Sequence Similarity Search - name: "protein-sequence-similarity-search" - description: "Searches for homologous protein sequences using MMseqs2 (fast, default) or BLAST (comprehensive, fallback). Trigger this whenever the user provides a protein sequence or FASTA file and asks to find ho..."